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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ), 'gf_id' => 'HOM05D001063', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001063' ), 'data_identifier' => 'HOM05D001063', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001063', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '574', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p10050' => 'bna', 'A06p10060' => 'bna', 'A06p10070' => 'bna', 'A06p10080' => 'bna', 'A06p10090' => 'bna', 'A06p10100' => 'bna', 'A06p43250' => 'bna', 'A06p43260' => 'bna', 'A07p05290' => 'bna', 'A07p29430' => 'bna', 'A08p32070' => 'bna', 'A08p32080' => 'bna', 'A08p32090' => 'bna', 'A08p32100' => 'bna', 'A09p10720' => 'bna', 'A09p24230' => 'bna', 'A09p62470' => 'bna', 'A09p62480' => 'bna', 'A09p62490' => 'bna', 'A09p62500' => 'bna', 'Aa31LG1G960' => 'aar', 'Aa31LG2G7280' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.226' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.233' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.234' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3921' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.654' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.2359' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2150' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2954' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.971' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.494' => 'aag', 'Actinidia19025' => 'ach', 'Actinidia19026' => 'ach', 'Actinidia19028' => 'ach', 'Actinidia19029' => 'ach', 'Actinidia19031' => 'ach', 'Actinidia19032' => 'ach', 'Actinidia31970' => 'ach', 'Ah.02g129460' => 'amhyb', 'Ah.03g134800' => 'amhyb', 'Ah.12g057460' => 'amhyb', 'Ah.12g057470' => 'amhyb', 'Ah.12g061840' => 'amhyb', 'AL1G25935' => 'aly', 'AL1G25970' => 'aly', 'AL1G25980' => 'aly', 'AL2G34270' => 'aly', 'AL3G47120' => 'aly', 'AL3G47130' => 'aly', 'AL5G12860' => 'aly', 'AL5G12870' => 'aly', 'Aqoxy3G03500' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1B9W47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8J6NGJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELM81N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GI0X5T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1YRXQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P9PDR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q1Z3N6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V0QUS1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VE7K9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XBVN4R' => 'arhy', 'AT1G14080' => 'ath', 'AT1G14100' => 'ath', 'AT1G14110' => 'ath', 'AT1G74420' => 'ath', 'AT2G03210' => 'ath', 'AT2G03220' => 'ath', 'AT2G15350' => 'ath', 'AT2G15360' => 'ath', 'AT2G15370' => 'ath', 'AT2G15390' => 'ath', 'ATR0564G378' => 'atr', 'ATR0787G132' => 'atr', 'ATR0787G221' => 'atr', 'Atru.chr11.1739' => 'acertr', 'AUR62005828' => 'cqu', 'AUR62010629' => 'cqu', 'AUR62017272' => 'cqu', 'AUR62032824' => 'cqu', 'BcaB02g06944' => 'bca', 'BcaB03g13109' => 'bca', 'BcaB03g13110' => 'bca', 'BcaB03g13111' => 'bca', 'BcaB03g13112' => 'bca', 'BcaB03g13113' => 'bca', 'BcaB03g16293' => 'bca', 'BcaB06g27054' => 'bca', 'BcaB07g30680' => 'bca', 'BcaB07g31790' => 'bca', 'BcaB08g34366' => 'bca', 'BcaB08g34367' => 'bca', 'BcaB08g34368' => 'bca', 'BcaC01g00809' => 'bca', 'BcaC04g21497' => 'bca', 'BcaC04g23048' => 'bca', 'BcaC05g25306' => 'bca', 'BcaC05g25307' => 'bca', 'BcaC05g25308' => 'bca', 'BcaC05g25309' => 'bca', 'BcaC06g31193' => 'bca', 'BcaC06g31194' => 'bca', 'BcaC06g31195' => 'bca', 'BcaC06g31196' => 'bca', 'BcaC06g34010' => 'bca', 'BcaC06g34011' => 'bca', 'BcaC06g36054' => 'bca', 'BcaC07g38718' => 'bca', 'BcaC07g38719' => 'bca', 'BcaC07g38720' => 'bca', 'BcaC07g38721' => 'bca', 'BcaC07g38723' => 'bca', 'BcaC07g41602' => 'bca', 'BcaC07g41603' => 'bca', 'BcaC07g41605' => 'bca', 'BcaC07g41606' => 'bca', 'BcaC09g51509' => 'bca', 'BcaC09g51510' => 'bca', 'BolC5t29939H' => 'bol', 'BolC5t29940H' => 'bol', 'BolC5t29941H' => 'bol', 'BolC5t29945H' => 'bol', 'BolC6t38453H' => 'bol', 'BolC7t41258H' => 'bol', 'BolC7t43884H' => 'bol', 'BolC7t43885H' => 'bol', 'BolC8t49273H' => 'bol', 'BolC8t49274H' => 'bol', 'BolC8t49275H' => 'bol', 'BolC8t49276H' => 'bol', 'BolC8t49280H' => 'bol', 'BolC8t52154H' => 'bol', 'BolC8t52155H' => 'bol', 'BolC8t52156H' => 'bol', 'BolC9t55969H' => 'bol', 'BraA06t24191Z' => 'bra', 'BraA06t24192Z' => 'bra', 'BraA06t24193Z' => 'bra', 'BraA06t24195Z' => 'bra', 'BraA06t27211Z' => 'bra', 'BraA06t27212Z' => 'bra', 'BraA07t28321Z' => 'bra', 'BraA07t30580Z' => 'bra', 'BraA08t35128Z' => 'bra', 'BraA08t35129Z' => 'bra', 'BraA08t35130Z' => 'bra', 'BraA08t35131Z' => 'bra', 'BraA08t35132Z' => 'bra', 'BraA08t35133Z' => 'bra', 'BraA08t35134Z' => 'bra', 'BraA09t36717Z' => 'bra', 'BraA09t38020Z' => 'bra', 'BraA09t41611Z' => 'bra', 'BraA09t41613Z' => 'bra', 'BraA09t41614Z' => 'bra', 'C05p11860' => 'bna', 'C05p11870' => 'bna', 'C05p11880' => 'bna', 'C05p11890' => 'bna', 'C06p33360' => 'bna', 'C07p08440' => 'bna', 'C07p33710' => 'bna', 'C07p33720' => 'bna', 'C08p16480' => 'bna', 'C08p16490' => 'bna', 'C08p16500' => 'bna', 'C08p16510' => 'bna', 'C08p46030' => 'bna', 'C08p46040' => 'bna', 'C08p46050' => 'bna', 'C08p46060' => 'bna', 'C09p12720' => 'bna', 'C09p31120' => 'bna', 'CAN.G201.37' => 'can', 'CAN.G479.70' => 'can', 'CAN.G648.14' => 'can', 'CANSAT80G0572' => 'cansat', 'CARHR014460' => 'chi', 'CARHR014480' => 'chi', 'CARHR014490' => 'chi', 'CARHR014500' => 'chi', 'CARHR036430' => 'chi', 'CARHR066550' => 'chi', 'CARHR066560' => 'chi', 'CARHR067680' => 'chi', 'CARHR105730' => 'chi', 'CARHR105760' => 'chi', 'CARHR105770' => 'chi', 'CARHR145540' => 'chi', 'CARHR145550' => 'chi', 'Carub.0001s1376' => 'cru', 'Carub.0001s1377' => 'cru', 'Carub.0001s1378' => 'cru', 'Carub.0001s1379' => 'cru', 'Carub.0002s2119' => 'cru', 'Carub.0003s2925' => 'cru', 'Carub.0003s2926' => 'cru', 'Carub.0005s0213' => 'cru', 'Carub.0005s0214' => 'cru', 'Ca_01011_v3' => 'car', 'Ca_01012_v3' => 'car', 'Ca_14658_v3' => 'car', 'Ca_21812_v3' => 'car', 'CBR_g22908' => 'cbr', 'CBR_g30622' => 'cbr', 'CBR_g31959' => 'cbr', 'CBR_g31969' => 'cbr', 'Cc00_g08400' => 'ccan', 'Cc00_g08410' => 'ccan', 'Cc00_g15300' => 'ccan', 'Cc04_g15100' => 'ccan', 'Cc04_g15110' => 'ccan', 'CDE02G0108' => 'cde', 'CDE02G4554' => 'cde', 'CDE04G2067' => 'cde', 'CDE08G1686' => 'cde', 'Cfa008941' => 'cfa', 'Cfa008942' => 'cfa', 'Cfa018919' => 'cfa', 'Ciclev10000769m.g' => 'ccl', 'Ciclev10000784m.g' => 'ccl', 'Ciclev10000822m.g' => 'ccl', 'Ciclev10003626m.g' => 'ccl', 'Ciclev10019479m.g' => 'ccl', 'Ciclev10033742m.g' => 'ccl', 'CiPaw.11G046700' => 'cil', 'ClCG04G012120' => 'cla', 'ClCG05G024070' => 'cla', 'ClCG07G010780' => 'cla', 'COL.COLO4_32019' => 'col', 'COL.COLO4_36924' => 'col', 'Cpa.g.sc1.58' => 'cpa', 'Cpa.g.sc341.1' => 'cpa', 'Cpa.g.sc57.37' => 'cpa', 'CsaV3_1G005650' => 'csa', 'CsaV3_4G007540' => 'csa', 'CsaV3_5G032970' => 'csa', 'CSS0000576' => 'camsi', 'CSS0006412' => 'camsi', 'CSS0019504' => 'camsi', 'CSS0021861' => 'camsi', 'CSS0024671' => 'camsi', 'CSS0029624' => 'camsi', 'DCAR_007172' => 'dca', 'DCAR_016572' => 'dca', 'Dinv10649' => 'din', 'Duzib084G1444' => 'dzi', 'Duzib205G1138' => 'dzi', 'Duzib268G1763' => 'dzi', 'ECA232G4872' => 'eca', 'ECA246G2354' => 'eca', 'ECA246G3589' => 'eca', 'ECA246G5247' => 'eca', 'EL10Ac4g08681' => 'bvu', 'EL10Ac5g12751' => 'bvu', 'EL10Ac6g13249' => 'bvu', 'Eucgr.B00531' => 'egr', 'Eucgr.B03204' => 'egr', 'FAN07G1471' => 'fan', 'FAN08G3445' => 'fan', 'FAN12G2774' => 'fan', 'FAN13G1066' => 'fan', 'FAN17G2068' => 'fan', 'FAN18G3421' => 'fan', 'FAN22G1748' => 'fan', 'FvH4_4g30950' => 'fve', 'FvH4_5g14640' => 'fve', 'Glyma.04G166600' => 'gma', 'Glyma.05G025400' => 'gma', 'Glyma.06G195900' => 'gma', 'Glyma.07G022300' => 'gma', 'Glyma.07G022400' => 'gma', 'Glyma.08G219500' => 'gma', 'Glyma.13G370500' => 'gma', 'Glyma.17G101602' => 'gma', 'Gohir.A07G064300' => 'ghi', 'Gohir.D07G069100' => 'ghi', 'Gohir.D13G077500' => 'ghi', 'Gorai.001G072600' => 'gra', 'Gorai.013G088600' => 'gra', 'GSVIVG01003228001' => 'vvi', 'GSVIVG01007978001' => 'vvi', 'HanXRQChr05g0154991' => 'han', 'HanXRQChr15g0490141' => 'han', 'Haze_07301' => 'cav', 'Haze_11969' => 'cav', 'Hma1.2p1_0060F.1_g033540' => 'hma', 'HPP92_002303' => 'vpl', 'Hund09818' => 'sun', 'Hund25216' => 'sun', 'Lalb_Chr00c36g0408851' => 'lal', 'Lalb_Chr00c36g0408911' => 'lal', 'Lalb_Chr01g0012031' => 'lal', 'Lalb_Chr04g0264521' => 'lal', 'Lalb_Chr04g0264531' => 'lal', 'Lalb_Chr08g0235541' => 'lal', 'Lalb_Chr16g0385741' => 'lal', 'Lalb_Chr20g0107991' => 'lal', 'Lalb_Chr24g0392861' => 'lal', 'Lalb_Chr25g0278801' => 'lal', 'Lalb_Chr25g0278811' => 'lal', 'Lj3g0006427' => 'lja', 'Lj3g0007685' => 'lja', 'Lj3g0019222' => 'lja', 'Lj3g0021186' => 'lja', 'Lj3g0026090' => 'lja', 'Lj4g0021182' => 'lja', 'Lj5C108G6' => 'lonja', 'Lj5C108T8' => 'lonja', 'Lj9A466T79' => 'lonja', 'LjContig00102g0027968' => 'lja', 'Lsat_1_v5_gn_4_109621' => 'lsa', 'Manes.01G033700' => 'mes', 'Manes.04G154700' => 'mes', 'Manes.04G154800' => 'mes', 'Manes.05G105300' => 'mes', 'Manes.11G009000' => 'mes', 'Manes.11G009200' => 'mes', 'Manes.14G080900' => 'mes', 'Mapoly0003s0134' => 'mpo', 'Mapoly0013s0123' => 'mpo', 'Mapoly0016s0100' => 'mpo', 'Mapoly0020s0081' => 'mpo', 'Mapoly0021s0069' => 'mpo', 'Mapoly0026s0127' => 'mpo', 'Mapoly0029s0110' => 'mpo', 'Mapoly0035s0074' => 'mpo', 'Mapoly0035s0077' => 'mpo', 'Mapoly0040s0005' => 'mpo', 'Mapoly0040s0103' => 'mpo', 'Mapoly0045s0099' => 'mpo', 'Mapoly0055s0022' => 'mpo', 'Mapoly0057s0027' => 'mpo', 'Mapoly0076s0054' => 'mpo', 'Mapoly0076s0055' => 'mpo', 'Mapoly0102s0023' => 'mpo', 'Mapoly0109s0033' => 'mpo', 'Mapoly0132s0047' => 'mpo', 'Mapoly0177s0004' => 'mpo', 'Mapoly0202s0006' => 'mpo', 'MBI02_g20484_MAGBIO' => 'mbi', 'MD00G1081500' => 'mdo', 'MD14G1203600' => 'mdo', 'MD16G1068500' => 'mdo', 'MD16G1068600' => 'mdo', 'MD16G1068700' => 'mdo', 'Medtr1g090430' => 'mtr', 'Medtr2g020730' => 'mtr', 'Medtr3g037560' => 'mtr', 'Medtr4g007220' => 'mtr', 'Medtr4g007360' => 'mtr', 'Medtr4g007380' => 'mtr', 'Medtr4g108780' => 'mtr', 'Medtr7g005890' => 'mtr', 'Medtr8g099865' => 'mtr', 'MELO3C001997.2' => 'cme', 'MELO3C012118.2' => 'cme', 'MELO3C016188.2' => 'cme', 'Migut.I00203' => 'egut', 'MSTRG.23006' => 'ama', 'Nitab4.5_0000256g0180' => 'nta', 'Nitab4.5_0001195g0060' => 'nta', 'Nitab4.5_0001211g0230' => 'nta', 'Nitab4.5_0001997g0150' => 'nta', 'Nitab4.5_0005900g0060' => 'nta', 'Nitab4.5_0007310g0010' => 'nta', 'Nn3g17287' => 'nnu', 'Nn3g17303' => 'nnu', 'Nn4g23251' => 'nnu', 'Nn4g23252' => 'nnu', 'Oeu006384.1' => 'oeu', 'Oeu047004.1' => 'oeu', 'Os02g0275200' => 'osa', 'Os02g0453400' => 'osa', 'Os02g0763200' => 'osa', 'Os02g0763800' => 'osa', 'Os02g0763900' => 'osa', 'Os02g0764200' => 'osa', 'Os02g0764400' => 'osa', 'Os04g0449100' => 'osa', 'Os04g0449200' => 'osa', 'Os06g0211600' => 'osa', 'Os06g0211700' => 'osa', 'Os06g0212100' => 'osa', 'Os06g0212300' => 'osa', 'Os06g0212400' => 'osa', 'Os06g0212500' => 'osa', 'Os06g0212600' => 'osa', 'Os08g0334900' => 'osa', 'Os09g0458100' => 'osa', 'Peaxi162Scf00069g01935' => 'pax', 'Peaxi162Scf00069g01936' => 'pax', 'Peaxi162Scf00106g00042' => 'pax', 'Peaxi162Scf00106g00422' => 'pax', 'Peaxi162Scf00274g00039' => 'pax', 'PGR083G1944' => 'pgr', 'PGR102G0457' => 'pgr', 'PGSC0003DMG400002109' => 'stu', 'PGSC0003DMG400019505' => 'stu', 'Phvul.003G188901' => 'pvu', 'Phvul.005G182600' => 'pvu', 'Phvul.009G185700' => 'pvu', 'Phvul.010G161900' => 'pvu', 'Phvul.010G162000' => 'pvu', 'Phvul.010G162100' => 'pvu', 'Potri.001G033800' => 'ptr', 'Potri.001G034100' => 'ptr', 'Potri.003G191200' => 'ptr', 'Potri.003G191301' => 'ptr', 'Potri.003G191401' => 'ptr', 'Potri.003G191500' => 'ptr', 'Potri.008G090000' => 'ptr', 'Pp3c12_12070' => 'ppa', 'Pp3c13_8950' => 'ppa', 'Pp3c14_3500' => 'ppa', 'Pp3c1_34020' => 'ppa', 'Pp3c1_6290' => 'ppa', 'Pp3c1_6320' => 'ppa', 'Pp3c22_16360' => 'ppa', 'Pp3c22_19990' => 'ppa', 'Pp3c4_27790' => 'ppa', 'Pp3c6_13730' => 'ppa', 'Pp3c6_13740' => 'ppa', 'Pp3c7_13890' => 'ppa', 'Pp3c9_4200' => 'ppa', 'Pp3c9_4201' => 'ppa', 'Prupe.1G278500' => 'ppe', 'Prupe.5G196900' => 'ppe', 'Psat4g050000' => 'psa', 'Psat5g098240' => 'psa', 'Psat5g200880' => 'psa', 'Psat7g133080' => 'psa', 'Psat7g262960' => 'psa', 'Psat7g263000' => 'psa', 'PSO063G5945' => 'pso', 'PSO832G2609' => 'pso', 'QL03p069154' => 'qlo', 'QL03p069181' => 'qlo', 'QL03p069226' => 'qlo', 'QL10p017525' => 'qlo', 'QL93p1999_0201' => 'qlo', 'QL93p1999_0225' => 'qlo', 'RcHm_v2.0_Chr3g0485401' => 'rch', 'RcHm_v2.0_Chr3g0485411' => 'rch', 'RcHm_v2.0_Chr4g0439291' => 'rch', 'RcHm_v2.0_Chr4g0439301' => 'rch', 'RcHm_v2.0_Chr7g0181851' => 'rch', 'Rhsim02G0011500' => 'rsi', 'Rhsim02G0012100' => 'rsi', 'Rhsim08G0152600' => 'rsi', 'Rhsim12G0079400' => 'rsi', 'Sabra01G0024100' => 'sbr', 'Sabra01G0024200' => 'sbr', 'Sabra03G0140900' => 'sbr', 'Sabra03G0141000' => 'sbr', 'Sabra03G0141100' => 'sbr', 'Sabra03G0141200' => 'sbr', 'Sabra08G0067400' => 'sbr', 'SalBow5G3480' => 'sbo', 'Sc11g0002110' => 'sci', 'Sc22g0000320' => 'sci', 'Sed0013749' => 'sed', 'Sed0015352' => 'sed', 'Sed0022264' => 'sed', 'Sed0024344' => 'sed', 'SEGI_10542' => 'sgi', 'SEGI_19162' => 'sgi', 'SGA_v2.0_scaffold313G48338' => 'sas', 'SHI04625' => 'shi', 'SHI04626' => 'shi', 'SMO011G0017' => 'smo', 'SMO117G0186' => 'smo', 'SMO134G0066' => 'smo', 'SMO137G0142' => 'smo', 'SMO141G0056' => 'smo', 'SMO147G0084' => 'smo', 'SMO172G0234' => 'smo', 'SMO175G0012' => 'smo', 'SMO198G0038' => 'smo', 'SMO198G0092' => 'smo', 'Solyc03g115830.2' => 'sly', 'Solyc06g061210.4' => 'sly', 'Solyc07g047920.3' => 'sly', 'Sopen03g034810' => 'spe', 'Sopen06g021410' => 'spe', 'Sopen07g024350' => 'spe', 'Sp1g12420' => 'spa', 'Sp1g12430' => 'spa', 'Sp1g12440' => 'spa', 'Sp1g12450' => 'spa', 'Sp2g14140' => 'spa', 'Sp2g14150' => 'spa', 'Sp3g28690' => 'spa', 'Sp5g29580' => 'spa', 'TAR622G1238' => 'tar', 'THA.LOC104801805' => 'tha', 'THA.LOC104805173' => 'tha', 'THA.LOC104805174' => 'tha', 'Thecc.02G341400' => 'tca', 'Thecc.03G093100' => 'tca', 'Thhalv10000629m.g' => 'esa', 'Thhalv10003931m.g' => 'esa', 'Thhalv10005557m.g' => 'esa', 'Thhalv10007297m.g' => 'esa', 'Thhalv10009330m.g' => 'esa', 'Thhalv10009357m.g' => 'esa', 'Thhalv10009405m.g' => 'esa', 'Thhalv10009670m.g' => 'esa', 'Thhalv10009872m.g' => 'esa', 'Thhalv10009946m.g' => 'esa', 'Thhalv10018409m.g' => 'esa', 'Thhalv10022636m.g' => 'esa', 'TPR.G10264' => 'tpr', 'TPR.G10280' => 'tpr', 'TPR.G11803' => 'tpr', 'TPR.G18984' => 'tpr', 'TPR.G19147' => 'tpr', 'TPR.G26753' => 'tpr', 'TPR.G3335' => 'tpr', 'TPR.G3354' => 'tpr', 'TPR.G39674' => 'tpr', 'TPR.G915' => 'tpr', 'TWI38G1578' => 'twi', 'TWI63G0158' => 'twi', 'TWI63G0231' => 'twi', 'TWI75G1172' => 'twi', 'unitig_21.g20077' => 'ugi', 'unitig_21.g20111' => 'ugi', 'unitig_21.g20115' => 'ugi', 'unitig_21.g20116' => 'ugi', 'unitig_21.g20120' => 'ugi', 'unitig_21.g20166' => 'ugi', 'unitig_21.g20167' => 'ugi', 'unitig_21.g20168' => 'ugi', 'unitig_21.g20169' => 'ugi', 'unitig_21.g20170' => 'ugi', 'unitig_21.g20171' => 'ugi', 'unitig_26.g9127' => 'ugi', 'unitig_26.g9130' => 'ugi', 'unitig_26.g9131' => 'ugi', 'unitig_26.g9650' => 'ugi', 'unitig_744.g24574' => 'ugi', 'unitig_744.g24586' => 'ugi', 'unitig_744.g24587' => 'ugi', 'vmacro17564' => 'vma', 'vmacro17565' => 'vma', 'VMungo1080G0013' => 'vmu', 'VMungo1080G1194' => 'vmu', 'VMungo1080G1728' => 'vmu', 'VMungo1215G2542' => 'vmu', 'VMungo1309G2441' => 'vmu', 'Zm00001eb077070' => 'zma', 'Zm00001eb081440' => 'zma', 'Zm00001eb117920' => 'zma', 'Zm00001eb168320' => 'zma', 'Zm00001eb193680' => 'zma', 'Zm00001eb193690' => 'zma', 'Zm00001eb203660' => 'zma', 'Zm00001eb225560' => 'zma', 'Zm00001eb255830' => 'zma', 'Zm00001eb255840' => 'zma', 'Zm00001eb279130' => 'zma', 'Zm00001eb299010' => 'zma', 'Zm00001eb299020' => 'zma', 'Zm00001eb299170' => 'zma', 'Zm00001eb314930' => 'zma', 'Zm00001eb372800' => 'zma', 'Zm00001eb372810' => 'zma', 'Zm00001eb373220' => 'zma', 'Zm00001eb373230' => 'zma', 'Zm00001eb373250' => 'zma', 'Zm00001eb373260' => 'zma', 'Zm00001eb423590' => 'zma' ) $gf_id = 'HOM05D001063' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001063' ) $data_identifier = 'HOM05D001063' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 38, 'aar' => (int) 2, 'aag' => (int) 10, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 1, 'arhy' => (int) 10, 'ath' => (int) 10, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 4, 'bca' => (int) 38, 'bol' => (int) 17, 'bra' => (int) 20, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 13, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 1, 'cla' => (int) 3, 'col' => (int) 2, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 2, 'din' => (int) 1, 'dzi' => (int) 3, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 7, 'fve' => (int) 2, 'gma' => (int) 8, 'ghi' => (int) 3, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'cav' => (int) 2, 'hma' => (int) 1, 'vpl' => (int) 1, 'sun' => (int) 2, 'lal' => (int) 11, 'lja' => (int) 7, 'lonja' => (int) 3, 'lsa' => (int) 1, 'mes' => (int) 7, 'mpo' => (int) 21, 'mbi' => (int) 1, 'mdo' => (int) 5, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 2, 'osa' => (int) 18, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 14, 'ppe' => (int) 2, 'psa' => (int) 6, 'pso' => (int) 2, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 1, 'sci' => (int) 2, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 1, 'shi' => (int) 2, 'smo' => (int) 10, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 8, 'tar' => (int) 1, 'tha' => (int) 3, 'tca' => (int) 2, 'esa' => (int) 12, 'tpr' => (int) 10, 'twi' => (int) 4, 'ugi' => (int) 18, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 22 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb423590' $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